Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 191 of 318
Found at i:59851788 original size:15 final size:15
Alignment explanation
Indices: 59851738--59851788 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
59851728 ATAGTTAAAA
*
59851738 AAATATATGTTTATT
1 AAATATATGTTAATT
59851753 AAAT-TATAG-TACATT
1 AAATATAT-GTTA-ATT
59851768 ATAATATATGTTAATT
1 A-AATATATGTTAATT
59851784 AAATA
1 AAATA
59851789 AGTAAAAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
14 4 0.13
15 13 0.43
16 8 0.27
17 5 0.17
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (15 bp):
AAATATATGTTAATT
Found at i:59851812 original size:4 final size:4
Alignment explanation
Indices: 59851803--59851835 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
59851793 AAAGAATAAA
59851803 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
59851836 TGATTCATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:59852961 original size:20 final size:20
Alignment explanation
Indices: 59852936--59853042 Score: 74
Period size: 20 Copynumber: 5.3 Consensus size: 20
59852926 TTGTACGGGA
59852936 TTTGCACTTCGATGCCCCTG
1 TTTGCACTTCGATGCCCCTG
* * * *
59852956 TTTGCACTTTGGTGTCTCTG
1 TTTGCACTTCGATGCCCCTG
** * *
59852976 TTCACACTACGGTGCCCCTG
1 TTTGCACTTCGATGCCCCTG
* *
59852996 TTTGCACATTTG-TGCCCTTG
1 TTTGCAC-TTCGATGCCCCTG
*
59853016 TTTGCACTTTGGA-GCCCCTG
1 TTTGCAC-TTCGATGCCCCTG
59853036 TTATGCA
1 TT-TGCA
59853043 TCTATGATGC
Statistics
Matches: 66, Mismatches: 18, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
20 60 0.91
21 6 0.09
ACGTcount: A:0.11, C:0.29, G:0.21, T:0.38
Consensus pattern (20 bp):
TTTGCACTTCGATGCCCCTG
Found at i:59857382 original size:40 final size:40
Alignment explanation
Indices: 59857337--59857466 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
59857327 CGGAATACAA
59857337 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
59857377 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
59857417 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
59857457 CCGGATATAA
1 CCGGATATAA
59857467 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:59857481 original size:40 final size:40
Alignment explanation
Indices: 59857337--59857500 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
59857327 CGGAATACAA
* **
59857337 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
59857377 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
59857417 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
59857457 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
59857497 CCGG
1 CCGG
59857501 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:59860106 original size:18 final size:19
Alignment explanation
Indices: 59860065--59860106 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
59860055 ATGTGTGTTT
59860065 ATGTACACTTATCGAATAA
1 ATGTACACTTATCGAATAA
59860084 ATGTACACTTATCGAAT-A
1 ATGTACACTTATCGAATAA
59860102 ATGTA
1 ATGTA
59860107 TAATCAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (19 bp):
ATGTACACTTATCGAATAA
Found at i:59860376 original size:37 final size:37
Alignment explanation
Indices: 59860326--59860466 Score: 171
Period size: 37 Copynumber: 3.8 Consensus size: 37
59860316 ACATGTAGTA
*
59860326 CGTGTAAGACCATAACTGGGCTATGGCATCGTAATAG
1 CGTGTAAGACCATAACTGGGCTATGGCATCGTGATAG
* *
59860363 CGTGTAAGACCATAGCTGGGCTATGGCATCATGAT-G
1 CGTGTAAGACCATAACTGGGCTATGGCATCGTGATAG
* * *
59860399 ACATGTAAGACCATAGCTGGGCTATGGCATTGTGATA-
1 -CGTGTAAGACCATAACTGGGCTATGGCATCGTGATAG
* *
59860436 CGTGTAAGACCATGACTGAGAC-ATGGCATCG
1 CGTGTAAGACCATAACTG-GGCTATGGCATCG
59860467 ATATGAGATC
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
36 24 0.27
37 66 0.73
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (37 bp):
CGTGTAAGACCATAACTGGGCTATGGCATCGTGATAG
Found at i:59860497 original size:42 final size:42
Alignment explanation
Indices: 59860437--59860591 Score: 134
Period size: 48 Copynumber: 3.4 Consensus size: 42
59860427 ATTGTGATAC
59860437 GTGTAAGACCATGA-CTGAGACATGGCATCGATATGAGATCCT
1 GTGTAAGACCAT-ATCTGAGACATGGCATCGATATGAGATCCT
* *
59860479 GTGTAAGACCATATCTGAGATATGGGATCAGCATCGATATGAGATCTT
1 GTGTAAGACCATATCTGAGACAT--G----GCATCGATATGAGATCCT
* *
59860527 GTGTAAGACCATATCTGGGATATGACATTAGCATCGATATGAGATTAC-
1 GTGTAAGACCATATCT--G--A-GACA-TGGCATCGATATGAGA-TCCT
59860575 GTGTAAGACCATATCTG
1 GTGTAAGACCATATCTG
59860592 GGATATGACT
Statistics
Matches: 93, Mismatches: 6, Indels: 24
0.76 0.05 0.20
Matches are distributed among these distances:
41 1 0.01
42 20 0.22
44 1 0.01
46 1 0.01
48 63 0.68
49 1 0.01
50 1 0.01
52 1 0.01
53 3 0.03
54 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATATCTGAGACATGGCATCGATATGAGATCCT
Found at i:59860532 original size:48 final size:48
Alignment explanation
Indices: 59860461--59860605 Score: 211
Period size: 48 Copynumber: 3.0 Consensus size: 48
59860451 CTGAGACATG
* * **
59860461 GCATCGATATGAGATCCTGTGTAAGACCATATCTGAGATATGGGATCA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGACATCA
*
59860509 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGACATTA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGACATCA
* *
59860557 GCATCGATATGAGAT-TACGTGTAAGACCATATCTGGGATATGACTTCA
1 GCATCGATATGAGATCT-TGTGTAAGACCATATCTGGGATATGACATCA
59860605 G
1 G
59860606 TATGAGATTT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
47 1 0.01
48 87 0.99
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (48 bp):
GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGACATCA
Found at i:59860623 original size:42 final size:46
Alignment explanation
Indices: 59860465--59860626 Score: 174
Period size: 48 Copynumber: 3.5 Consensus size: 46
59860455 GACATGGCAT
* * ** *
59860465 CGATATGAGA-TCCTGTGTAAGACCATATCTGAGATATGGGATCAGCA
1 CGATATGAGATTTC-GTGTAAGACCATATCTGGGATATGACATTA-CA
59860512 TCGATATGAGATCTT-GTGTAAGACCATATCTGGGATATGACATTAGCA
1 -CGATATGAGAT-TTCGTGTAAGACCATATCTGGGATATGACATTA-CA
*
59860560 TCGATATGAGATTACGTGTAAGACCATATCTGGGATATGAC-TT-CA
1 -CGATATGAGATTTCGTGTAAGACCATATCTGGGATATGACATTACA
59860605 -G-TATGAGATTTCGTGTAAGACC
1 CGATATGAGATTTCGTGTAAGACC
59860627 GTGCCTGGGA
Statistics
Matches: 104, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
42 20 0.19
43 1 0.01
45 2 0.02
47 3 0.03
48 77 0.74
50 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (46 bp):
CGATATGAGATTTCGTGTAAGACCATATCTGGGATATGACATTACA
Found at i:59867229 original size:46 final size:46
Alignment explanation
Indices: 59867172--59867297 Score: 209
Period size: 46 Copynumber: 2.7 Consensus size: 46
59867162 TTTGAGTATT
*
59867172 GAGCTCATTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCC
1 GAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCC
*
59867218 GAGCTCGTTGAGTTGAG-TCTGAGTTCACTTATGGATGCGAACTCCC
1 GAGCTCGTTGAGTTGAGTTC-GAGTTCACTTATGGATGCGAACGCCC
*
59867264 GAGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 GAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGG
59867298 GCAGGTTACA
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
45 2 0.03
46 71 0.95
47 2 0.03
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (46 bp):
GAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCC
Found at i:59870635 original size:29 final size:28
Alignment explanation
Indices: 59870594--59870673 Score: 99
Period size: 29 Copynumber: 2.8 Consensus size: 28
59870584 GACTGTAAAA
59870594 GTGATTGGGCCTAGTGGGCCACAT-AGAT
1 GTGATTGGGCCTAGTGGGCCACATGA-AT
* *
59870622 GTGATTTGGGCCTAATGGGCCATATGAAT
1 GTGA-TTGGGCCTAGTGGGCCACATGAAT
* *
59870651 GAGATTGGGCCTAGTAGGCCACA
1 GTGATTGGGCCTAGTGGGCCACA
59870674 AGCATGTATG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
28 20 0.45
29 23 0.52
30 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (28 bp):
GTGATTGGGCCTAGTGGGCCACATGAAT
Found at i:59875757 original size:19 final size:19
Alignment explanation
Indices: 59875733--59875773 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
59875723 TCCAATTGCG
59875733 AAAAAGGAATAAATCGCAT
1 AAAAAGGAATAAATCGCAT
*
59875752 AAAAAGGACTAAATCGCAT
1 AAAAAGGAATAAATCGCAT
59875771 AAA
1 AAA
59875774 GTAAAAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.59, C:0.12, G:0.15, T:0.15
Consensus pattern (19 bp):
AAAAAGGAATAAATCGCAT
Found at i:59876912 original size:48 final size:48
Alignment explanation
Indices: 59876813--59876990 Score: 206
Period size: 47 Copynumber: 3.8 Consensus size: 48
59876803 ATTTGTTTCT
* ** *
59876813 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACAAGACGA
* **
59876859 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGG-TATTGAGACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA-CAAGACGA
*
59876907 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACAAGATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACAAGACGA
* *
59876953 TAG-TCAGTGTAAGACCGTGTCTGGGACATGGCATCGGC
1 GAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGC
59876991 ACTTTACCCA
Statistics
Matches: 112, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
45 1 0.01
46 37 0.33
47 42 0.38
48 32 0.29
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.23
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACAAGACGA
Found at i:59876974 original size:94 final size:94
Alignment explanation
Indices: 59876813--59876989 Score: 284
Period size: 94 Copynumber: 1.9 Consensus size: 94
59876803 ATTTGTTTCT
**
59876813 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCTAGTGTAAGACCATG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCTAGTGTAAGACCATG
59876878 TCTAGGACATGGCATCGGTATTGAGACGA
66 TCTAGGACATGGCATCGGTATTGAGACGA
* * *
59876907 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGATAG-TCAGTGTAAGACCGT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCT-AGTGTAAGACCAT
*
59876971 GTCTGGGACATGGCATCGG
65 GTCTAGGACATGGCATCGG
59876990 CACTTTACCC
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
93 1 0.01
94 75 0.99
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (94 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCTAGTGTAAGACCATG
TCTAGGACATGGCATCGGTATTGAGACGA
Found at i:59881605 original size:30 final size:30
Alignment explanation
Indices: 59881548--59881605 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
59881538 TTTTTGAGCA
** **
59881548 TAGGGGTAAAATGGTCATTTTGGCAAAGTT
1 TAGGGGTAAAACAGTCATTTTACCAAAGTT
59881578 TAGGGGTAAAACAGTCATTTTACCAAAG
1 TAGGGGTAAAACAGTCATTTTACCAAAG
59881606 ATGTGAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.29
Consensus pattern (30 bp):
TAGGGGTAAAACAGTCATTTTACCAAAGTT
Found at i:59882094 original size:46 final size:46
Alignment explanation
Indices: 59881945--59882111 Score: 185
Period size: 46 Copynumber: 3.6 Consensus size: 46
59881935 ATTTGTTTGT
* * * * *
59881945 GAGCTAATGTAAGACATGTCTGAGACATGCATCGCCCAC-ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGA
* * * *
59881991 GAGCTAGTGTAAAACCATGTCTGGGATATGGCATCGGCATTGAGATGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGA
*
59882039 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-A
*
59882086 G-GCCAGTGTAAGACATGTCTGGGACA
1 GAGCTAGTGTAAGACATGTCTGGGACA
59882112 GGTACCGACT
Statistics
Matches: 102, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
46 50 0.49
47 27 0.26
48 24 0.24
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA
Found at i:59884135 original size:27 final size:26
Alignment explanation
Indices: 59884105--59884162 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
59884095 GTACCTAGAC
*
59884105 CCCCTA-ATTAGTAAAATGATTGAAATG
1 CCCCTACA-TAGT-AAATGACTGAAATG
* *
59884132 CCCCTACATGGTAAATGACTGATATG
1 CCCCTACATAGTAAATGACTGAAATG
59884158 CCCCT
1 CCCCT
59884163 TTGAGATGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 17 0.63
27 9 0.33
28 1 0.04
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (26 bp):
CCCCTACATAGTAAATGACTGAAATG
Found at i:59894056 original size:40 final size:40
Alignment explanation
Indices: 59894012--59894179 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
59894002 CGAAATACAA
59894012 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
59894052 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
59894092 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** *
59894132 CCGGATATAATTTCCAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
59894172 CCGGATAT
1 CCGGATAT
59894180 CATTCAATTG
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 3 0.03
40 103 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:59902005 original size:40 final size:40
Alignment explanation
Indices: 59901960--59902127 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
59901950 CGGAATACAA
59901960 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
59902000 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
59902040 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
59902080 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
59902120 CCGGATAT
1 CCGGATAT
59902128 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:59907886 original size:71 final size:71
Alignment explanation
Indices: 59907800--59907963 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
59907790 CGATTTGTCT
59907800 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
59907865 CTTTCA
66 CTTTCA
59907871 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
59907936 CTTTCA
66 CTTTCA
59907942 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
59907964 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:59908001 original size:71 final size:70
Alignment explanation
Indices: 59907800--59907997 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
59907790 CGATTTGTCT
* * *
59907800 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
59907865 CTTTCA
65 CTTTCA
* * *
59907871 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
59907936 CTTTCA
65 CTTTCA
* *
59907942 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
59907998 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:59915458 original size:71 final size:71
Alignment explanation
Indices: 59915372--59915535 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
59915362 CGATTTGTCT
59915372 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
59915437 CTTTCA
66 CTTTCA
59915443 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
59915508 CTTTCA
66 CTTTCA
59915514 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
59915536 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:59915573 original size:71 final size:70
Alignment explanation
Indices: 59915372--59915569 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
59915362 CGATTTGTCT
* * * *
59915372 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
59915437 CTTTCA
65 CTTTCA
* * * *
59915443 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
59915508 CTTTCA
65 CTTTCA
* *
59915514 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
59915570 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:59920959 original size:21 final size:22
Alignment explanation
Indices: 59920919--59920960 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
59920909 GCCATGTGAG
*
59920919 CCACACGGGCGTGTTGCCCCTC
1 CCACACAGGCGTGTTGCCCCTC
59920941 CCACACAGGCGTG-TGCCCCT
1 CCACACAGGCGTGTTGCCCCT
59920961 ATGTCAAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.12, C:0.45, G:0.26, T:0.17
Consensus pattern (22 bp):
CCACACAGGCGTGTTGCCCCTC
Found at i:59921521 original size:9 final size:9
Alignment explanation
Indices: 59921507--59921532 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
59921497 TCTGAATACT
59921507 CCACCTCCC
1 CCACCTCCC
59921516 CCACCTCCC
1 CCACCTCCC
59921525 CCACCTCC
1 CCACCTCC
59921533 TATGATTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.77, G:0.00, T:0.12
Consensus pattern (9 bp):
CCACCTCCC
Found at i:59923976 original size:12 final size:12
Alignment explanation
Indices: 59923952--59923986 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
59923942 CTCATTAAGC
*
59923952 TTTAATTCTATA
1 TTTAATTCAATA
*
59923964 TTTTATTCAATA
1 TTTAATTCAATA
59923976 TTTAATTCAAT
1 TTTAATTCAAT
59923987 TTCCACAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (12 bp):
TTTAATTCAATA
Found at i:59926127 original size:46 final size:46
Alignment explanation
Indices: 59926074--59926166 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
59926064 TATCTCATAA
59926074 TTAGTGCTAAAGAACCTTTTCCTTTAGCCTTCATTAAAATCCAGGG
1 TTAGTGCTAAAGAACCTTTTCCTTTAGCCTTCATTAAAATCCAGGG
59926120 TTAGTGCTAAAGAACCTTTTCCTTTAGCCTTCATTAAAATCCAGGG
1 TTAGTGCTAAAGAACCTTTTCCTTTAGCCTTCATTAAAATCCAGGG
59926166 T
1 T
59926167 CTTATTTAGC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (46 bp):
TTAGTGCTAAAGAACCTTTTCCTTTAGCCTTCATTAAAATCCAGGG
Found at i:59926944 original size:2 final size:2
Alignment explanation
Indices: 59926937--59926962 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
59926927 GGGTCTCCTA
59926937 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
59926963 GCACTTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59927531 original size:15 final size:15
Alignment explanation
Indices: 59927490--59927552 Score: 63
Period size: 15 Copynumber: 4.2 Consensus size: 15
59927480 GAAAACCAGA
*
59927490 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
* * *
59927505 ACAGAGGAATCCAAG
1 ATAAAGAAATCCAAG
*
59927520 ATAAAGATATCCAAG
1 ATAAAGAAATCCAAG
* *
59927535 GTACAGAAATCCAAG
1 ATAAAGAAATCCAAG
59927550 ATA
1 ATA
59927553 CCATATCATA
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.51, C:0.16, G:0.17, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:59929103 original size:18 final size:18
Alignment explanation
Indices: 59929080--59929123 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
59929070 TGTAGATGGG
*
59929080 CCGTGTGGACTCACACGC
1 CCGTGTGGACTCACACAC
**
59929098 CCGTGTCTACTCACACAC
1 CCGTGTGGACTCACACAC
59929116 CCGTGTGG
1 CCGTGTGG
59929124 CTTGGGGCAC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.16, C:0.39, G:0.25, T:0.20
Consensus pattern (18 bp):
CCGTGTGGACTCACACAC
Found at i:59929545 original size:37 final size:37
Alignment explanation
Indices: 59929481--59929556 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
59929471 TTACAAGCCA
59929481 AAATCATTATAAGCCACATCTCATGGCTACAT-ACAAC
1 AAATCATTATAAGCCACATCTCATGGCTA-ATCACAAC
*
59929518 AAATCATTATAAGCCA-ATACAT-TTGGCTAATCACAAC
1 AAATCATTATAAGCCACAT-C-TCATGGCTAATCACAAC
59929555 AA
1 AA
59929557 CATCGGTCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
36 4 0.11
37 30 0.86
38 1 0.03
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (37 bp):
AAATCATTATAAGCCACATCTCATGGCTAATCACAAC
Found at i:59938348 original size:22 final size:21
Alignment explanation
Indices: 59938323--59938363 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
59938313 TCAAATTGGT
*
59938323 CACACCGGCATGTTGCCCTTCC
1 CACACAGGCATG-TGCCCTTCC
*
59938345 CACACAGGCGTGTGCCCTT
1 CACACAGGCATGTGCCCTT
59938364 GTGTCAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.15, C:0.41, G:0.22, T:0.22
Consensus pattern (21 bp):
CACACAGGCATGTGCCCTTCC
Found at i:59940186 original size:40 final size:40
Alignment explanation
Indices: 59940137--59940304 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
59940127 TCTTCGGAAT
* * *
59940137 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
59940176 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
59940216 TTAGCCTGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
59940256 TTAGCCCGGATAGAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
59940296 TTAGCCCGG
1 TTAGCCCGG
59940305 GTATCATTCA
Statistics
Matches: 106, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 3 0.03
40 102 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:59940241 original size:80 final size:79
Alignment explanation
Indices: 59940128--59940301 Score: 206
Period size: 80 Copynumber: 2.2 Consensus size: 79
59940118 AACCGAGTCT
* * * * * *
59940128 CTTCGGAATTTAGCCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTG-GT
1 CTTCGGGACTTAGCCGGATATAACAACAAGCACAAATGCCTTCGGGTCTTAACCCGGA-TAGAAT
*
59940192 AACTTGCACAAATGC
65 AACTAGCACAAATGC
* ** *
59940207 CTTCGGGTCTTAGCCTGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAAT
1 CTTCGGGACTTAGCC-GGATATAACAACAAGCACAAATGCCTTCGGGTCTTAACCCGGATAGAAT
* *
59940272 CACTAGCATAAATGC
65 AACTAGCACAAATGC
59940287 CTTCGGGACTTAGCC
1 CTTCGGGACTTAGCC
59940302 CGGGTATCAT
Statistics
Matches: 79, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 14 0.18
80 65 0.82
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAACAACAAGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATA
ACTAGCACAAATGC
Found at i:59946743 original size:29 final size:29
Alignment explanation
Indices: 59946710--59946840 Score: 165
Period size: 29 Copynumber: 4.5 Consensus size: 29
59946700 GTGATGAGAT
*
59946710 TGGCACTAAGTGTGCATGCTGAAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
59946739 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
59946768 TGGCACTAAGTGTGCATGGTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
59946797 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
59946826 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
59946841 GGGTTTAAAA
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
29 87 0.99
30 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:59946899 original size:28 final size:29
Alignment explanation
Indices: 59946859--59946928 Score: 108
Period size: 29 Copynumber: 2.4 Consensus size: 29
59946849 AATTGTACAA
*
59946859 CACTAAGTGTGCGAGTTTG-AT-TATATAG
1 CACTAAGTGTGCGAG-TTGAATACATATAG
59946887 CACTAAGTGTGCGAGTTGAATACATATAG
1 CACTAAGTGTGCGAGTTGAATACATATAG
59946916 CACTAAGTGTGCG
1 CACTAAGTGTGCG
59946929 GATTCACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 3 0.08
28 17 0.44
29 19 0.49
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (29 bp):
CACTAAGTGTGCGAGTTGAATACATATAG
Found at i:59951650 original size:40 final size:40
Alignment explanation
Indices: 59951601--59951768 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
59951591 TCTTCGGAAT
* * *
59951601 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
59951640 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
59951680 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
59951720 TTAGCCCGGATAGAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
59951760 TTAGCCCGG
1 TTAGCCCGG
59951769 GTATCATTCA
Statistics
Matches: 106, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 3 0.03
40 102 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:59951728 original size:80 final size:80
Alignment explanation
Indices: 59951592--59951768 Score: 207
Period size: 80 Copynumber: 2.2 Consensus size: 80
59951582 AACCGAGTCT
* * * * *
59951592 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTG-G
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGA-TAGAA
*
59951655 TAACTTGCACAAATGC
65 TAACTAGCACAAATGC
* ** *
59951671 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATAGAA
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATAGAA
* *
59951735 TCACTAGCATAAATGC
65 TAACTAGCACAAATGC
59951751 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
59951769 GTATCATTCA
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 12 0.15
80 68 0.83
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATAGAAT
AACTAGCACAAATGC
Found at i:59954198 original size:29 final size:29
Alignment explanation
Indices: 59954165--59954353 Score: 238
Period size: 29 Copynumber: 6.5 Consensus size: 29
59954155 GTGACGAGAT
59954165 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
59954194 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
59954223 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
59954252 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
59954281 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
59954310 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
59954339 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
59954354 GAAATCGAGT
Statistics
Matches: 140, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
28 2 0.01
29 137 0.98
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:59956296 original size:40 final size:40
Alignment explanation
Indices: 59956232--59956367 Score: 164
Period size: 40 Copynumber: 3.4 Consensus size: 40
59956222 GGCCTACGGA
* * * *
59956232 CTTAACCCGGATATCACGATTTGCACAAATGCCTTCGGGT
1 CTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGGT
* *
59956272 CTTAGCCCGGATTTAACAACTTGCACGAATGCCTTCGGGT
1 CTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGGT
* * * *
59956312 CTTAGCCCGGATATAGCTACTAGCACAATTGCCTTCGGGT
1 CTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGGT
* *
59956352 CTTAACCCGGTTATAA
1 CTTAGCCCGGATATAA
59956368 TTTCCAGCAT
Statistics
Matches: 81, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (40 bp):
CTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGGT
Found at i:59956382 original size:40 final size:40
Alignment explanation
Indices: 59956254--59956405 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
59956244 ATCACGATTT
* * * **
59956254 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* *
59956294 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * * *
59956334 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
59956374 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
59956406 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 91 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
Found at i:59965430 original size:29 final size:29
Alignment explanation
Indices: 59965397--59965585 Score: 238
Period size: 29 Copynumber: 6.5 Consensus size: 29
59965387 GTGACGAGAT
59965397 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
59965426 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
59965455 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
59965484 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
59965513 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
59965542 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
59965571 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
59965586 GAAATCGAGT
Statistics
Matches: 140, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
28 2 0.01
29 137 0.98
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:59970642 original size:20 final size:20
Alignment explanation
Indices: 59970617--59970658 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
59970607 TGCTGTGCCA
59970617 TGTAAGAAGTTGAATGTCAG
1 TGTAAGAAGTTGAATGTCAG
59970637 TGTAAGAAGTTGAATGTCAG
1 TGTAAGAAGTTGAATGTCAG
59970657 TG
1 TG
59970659 GAACTCTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.31, T:0.31
Consensus pattern (20 bp):
TGTAAGAAGTTGAATGTCAG
Found at i:59982329 original size:43 final size:43
Alignment explanation
Indices: 59982304--59982393 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 43
59982294 CTGGGACATT
* * **
59982304 GGCATCGTTATTTGATTTCATGTAAGACCATAGCTAGGCTATC
1 GGCATCGATATGTGATAACATGTAAGACCATAGCTAGGCTATC
* *
59982347 GGCATCGATATGTGATAACATGTAAGACCATATCTAGGATAT-
1 GGCATCGATATGTGATAACATGTAAGACCATAGCTAGGCTATC
59982389 GGCAT
1 GGCAT
59982394 TGTACGAGCT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 5 0.12
43 36 0.88
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (43 bp):
GGCATCGATATGTGATAACATGTAAGACCATAGCTAGGCTATC
Found at i:59988679 original size:46 final size:48
Alignment explanation
Indices: 59988572--59988744 Score: 179
Period size: 48 Copynumber: 3.6 Consensus size: 48
59988562 TGAGAGCCAA
* * ** *** *
59988572 TGTAAGACATGTTTGGGACATGCATCGACCTCAAGATATTTAAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGACATTGAGATAGACAAGCTAG
* * *
59988620 TGTAAGACATGTCTGGGACATGCATCGGCATTGAG-TCGA-GAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGACATTGAGATAGACAAGCTAG
* * * *
59988666 TGTAAGACATGTCTGAGACATGCATCGACCTTGTGATATACAAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGACATTGAGATAGACAAGCTAG
*
59988714 TGTAAGACCTGTCTGGGACATGGCATCGACA
1 TGTAAGACATGTCTGGGACAT-GCATCGACA
59988745 CTGATAGATG
Statistics
Matches: 102, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
46 36 0.35
47 3 0.03
48 55 0.54
49 8 0.08
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
TGTAAGACATGTCTGGGACATGCATCGACATTGAGATAGACAAGCTAG
Found at i:59988686 original size:94 final size:93
Alignment explanation
Indices: 59988524--59988741 Score: 249
Period size: 94 Copynumber: 2.3 Consensus size: 93
59988514 CGTGTGTGCT
* * * *
59988524 AGTGTAAGACATGTCCGGGACATGCATTAGCCACAGCATGAGAGCCAATGTAAGACATGTTTGGG
1 AGTGTAAGACATGTCTGGGACATGCA-TCGCCACAGCATGAGAGCCAATGTAAGACATGTCTGAG
**
59988589 ACATGCATCGACCTCAAGATATTTAAGCC
65 ACATGCATCGACCTCAAGATATACAAGCC
* ** * *
59988618 AGTGTAAGACATGTCTGGGACATGCATCGGCATTG-AGTCGAGAGCTAGTGTAAGACATGTCTGA
1 AGTGTAAGACATGTCTGGGACATGCATCGCCACAGCA-T-GAGAGCCAATGTAAGACATGTCTGA
*** *
59988682 GACATGCATCGACCTTGTGATATACAAGCT
64 GACATGCATCGACCTCAAGATATACAAGCC
*
59988712 AGTGTAAGACCTGTCTGGGACATGGCATCG
1 AGTGTAAGACATGTCTGGGACAT-GCATCG
59988742 ACACTGATAG
Statistics
Matches: 105, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
92 1 0.01
93 6 0.06
94 92 0.88
95 6 0.06
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCACAGCATGAGAGCCAATGTAAGACATGTCTGAGA
CATGCATCGACCTCAAGATATACAAGCC
Found at i:59997317 original size:40 final size:40
Alignment explanation
Indices: 59997258--59997399 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
59997248 AAATTGAATC
* * *
59997258 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
59997298 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
59997338 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
59997378 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
59997400 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:59997400 original size:40 final size:39
Alignment explanation
Indices: 59997297--59997425 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
59997287 TGCTGGAAAT
* * *
59997297 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
59997337 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
59997377 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
59997417 TATATCCGG
1 TATATCCGG
59997426 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:60005250 original size:40 final size:40
Alignment explanation
Indices: 60005191--60005332 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
60005181 AAATTGAATG
* * *
60005191 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
60005231 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
60005271 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
60005311 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
60005333 GCATTGTGCA
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:60005333 original size:40 final size:39
Alignment explanation
Indices: 60005230--60005341 Score: 152
Period size: 40 Copynumber: 2.8 Consensus size: 39
60005220 TGCTGGAAAT
* * *
60005230 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
60005270 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
*
60005310 TCTATCCGGGCTAAGACCCGAAGGCATTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCATTGTGC
60005342 ATTGTAAGAC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
39 7 0.11
40 58 0.89
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:60011412 original size:40 final size:39
Alignment explanation
Indices: 60011346--60011510 Score: 147
Period size: 40 Copynumber: 4.2 Consensus size: 39
60011336 AAATTGAATG
* *
60011346 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-TGCTGGAGATT
* * * **
60011385 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-TGCTGGAGATT
* *
60011425 ACATCCGGGCTAAGACCCGAAGGC-ATTCG-TGCGAGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTTGCTG-GAGATT
* * ** *
60011463 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-TGCTGGAGATT
60011503 ATATCCGG
1 ATATCCGG
60011511 TTATATTCCG
Statistics
Matches: 98, Mismatches: 23, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
37 1 0.01
38 26 0.27
39 18 0.18
40 53 0.54
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTTGCTGGAGATT
Found at i:60011478 original size:38 final size:38
Alignment explanation
Indices: 60011347--60011494 Score: 149
Period size: 40 Copynumber: 3.8 Consensus size: 38
60011337 AATTGAATGA
* * * *
60011347 TATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATTA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGATTC
* * *
60011386 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAT-TC
60011424 TACATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGATTC
1 T--ATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGATTC
*
60011464 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
60011495 ACGTGATTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
37 1 0.01
38 28 0.31
39 17 0.19
40 44 0.48
41 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (38 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGATTC
Found at i:60011509 original size:78 final size:78
Alignment explanation
Indices: 60011346--60011510 Score: 192
Period size: 78 Copynumber: 2.1 Consensus size: 78
60011336 AAATTGAATG
*
60011346 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGC-GGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
60011411 TTGTGCTAGTGGCT
65 TTGTGCTAGTGACT
* * * * *
60011425 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCGGAAATTATATCCGGGCTAAGACCCGAAGGCA
* *
60011488 TTTGTGC-ACGTGATT
64 ATTGTGCTA-GTGACT
60011503 ATATCCGG
1 ATATCCGG
60011511 TTATATTCCG
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
77 1 0.01
78 45 0.62
79 16 0.22
80 11 0.15
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (78 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCGGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCTAGTGACT
Found at i:60012887 original size:40 final size:40
Alignment explanation
Indices: 60012832--60012910 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
60012822 AACCCCTCGG
*
60012832 GTCCGACACCGGCGATGGTCTCGGGTTTGGGGTGTTACAT
1 GTCCGACACCGGCGATGGTCTCGGGTTCGGGGTGTTACAT
60012872 GTCCGACACCGGCGATGGTCTCGGGTTCGGGGTGTTACA
1 GTCCGACACCGGCGATGGTCTCGGGTTCGGGGTGTTACA
60012911 AATCAACAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.13, C:0.24, G:0.38, T:0.25
Consensus pattern (40 bp):
GTCCGACACCGGCGATGGTCTCGGGTTCGGGGTGTTACAT
Found at i:60019587 original size:49 final size:49
Alignment explanation
Indices: 60019527--60019689 Score: 209
Period size: 49 Copynumber: 3.5 Consensus size: 49
60019517 TACATATGTG
* * *
60019527 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
*
60019576 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAA--G--TG--TA
1 TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
*
60019619 --TG-TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
*
60019665 TGTGATAAGGCCTAATGGCTAATGT
1 TGTGATAAGGCCTAATGGCCAATGT
60019690 AAAATATATG
Statistics
Matches: 99, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
40 33 0.33
41 2 0.02
42 1 0.01
43 2 0.02
44 2 0.02
45 2 0.02
46 2 0.02
47 1 0.01
48 2 0.02
49 52 0.53
ACGTcount: A:0.29, C:0.10, G:0.32, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:60019625 original size:40 final size:40
Alignment explanation
Indices: 60019581--60019662 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
60019571 GTATATGTGA
60019581 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
60019621 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
60019661 TA
1 TA
60019663 TATGTGATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.28, C:0.10, G:0.34, T:0.28
Consensus pattern (40 bp):
TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
Found at i:60019835 original size:37 final size:37
Alignment explanation
Indices: 60019785--60019869 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
60019775 GGAATATGTT
*
60019785 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
60019822 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
60019859 CCGGGTAAGAC
1 CCGGGTAAGAC
60019870 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:60026960 original size:16 final size:16
Alignment explanation
Indices: 60026939--60026972 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
60026929 TAGTAAAGGA
60026939 GATGGTGCACAATCTT
1 GATGGTGCACAATCTT
*
60026955 GATGGTGCATAATCTT
1 GATGGTGCACAATCTT
60026971 GA
1 GA
60026973 CGTAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (16 bp):
GATGGTGCACAATCTT
Found at i:60028418 original size:18 final size:18
Alignment explanation
Indices: 60028367--60028430 Score: 67
Period size: 20 Copynumber: 3.4 Consensus size: 18
60028357 TCTCTCAACA
*
60028367 AAAATTTTAAAAAAATTC
1 AAAATTTTATAAAAATTC
60028385 AACATATTTT-TCAAAAATTC
1 AA-A-ATTTTAT-AAAAATTC
*
60028405 AAAATTTTATAAAAGTTCC
1 AAAATTTTATAAAAATT-C
60028424 AAAATTT
1 AAAATTT
60028431 ATATTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
18 13 0.33
19 11 0.28
20 15 0.38
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.38
Consensus pattern (18 bp):
AAAATTTTATAAAAATTC
Found at i:60028458 original size:21 final size:21
Alignment explanation
Indices: 60028433--60028472 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
60028423 CAAAATTTAT
60028433 ATTTTAAAAAAATTATAAAAA
1 ATTTTAAAAAAATTATAAAAA
*
60028454 ATTTTAAAAAAATTCTAAA
1 ATTTTAAAAAAATTATAAA
60028473 GAGTATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTTTAAAAAAATTATAAAAA
Found at i:60028677 original size:7 final size:8
Alignment explanation
Indices: 60028660--60028684 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
60028650 TAGAATAAGA
60028660 TTTTAATT
1 TTTTAATT
60028668 TTTTAATT
1 TTTTAATT
60028676 TTTTAATT
1 TTTTAATT
60028684 T
1 T
60028685 AACTAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTAATT
Found at i:60029639 original size:31 final size:31
Alignment explanation
Indices: 60029604--60029671 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
60029594 AATCAATTAA
*
60029604 TTAAATCAAAAAAATTATGAAATTTAATCAT
1 TTAAATCAAAAAAATTACGAAATTTAATCAT
*
60029635 TTAAATCAAAAAAATTACGAATTTTAATCAT
1 TTAAATCAAAAAAATTACGAAATTTAATCAT
*
60029666 TGAAAT
1 TTAAAT
60029672 GAAGTGTACT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.35
Consensus pattern (31 bp):
TTAAATCAAAAAAATTACGAAATTTAATCAT
Found at i:60040134 original size:6 final size:6
Alignment explanation
Indices: 60040123--60040164 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
60040113 TGAAGGAGAG
* *
60040123 GGGGGA GGGGGA GGGG-A GGGGAA GGGGAA GGGGAA -GGGAA GG
1 GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GG
60040165 AAATATCTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 10 0.29
6 24 0.71
ACGTcount: A:0.26, C:0.00, G:0.74, T:0.00
Consensus pattern (6 bp):
GGGGAA
Found at i:60040148 original size:17 final size:17
Alignment explanation
Indices: 60040123--60040164 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
60040113 TGAAGGAGAG
* *
60040123 GGGGGAGGGGGAGGGGA
1 GGGGAAGGGGAAGGGGA
60040140 GGGGAAGGGGAAGGGGA
1 GGGGAAGGGGAAGGGGA
*
60040157 AGGGAAGG
1 GGGGAAGG
60040165 AAATATCTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.74, T:0.00
Consensus pattern (17 bp):
GGGGAAGGGGAAGGGGA
Found at i:60045019 original size:53 final size:52
Alignment explanation
Indices: 60044886--60045038 Score: 173
Period size: 52 Copynumber: 2.9 Consensus size: 52
60044876 TGATATGTAC
**
60044886 TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATTCGAGA
1 TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATGATGTGATTCGAGA
* * * * *
60044938 TCCCGTATAATACCATAGCAGGGCTATGGCATTGGTATGATGTGATAAT-GTGA
1 TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATGATGTGAT--TCGAGA
* * *
60044991 TTCCGTATAAGACCATATCTGAGATATGGCATCGGTATGTTATGTGAT
1 TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATG--ATGTGAT
60045039 CCGTGTAAGA
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
52 40 0.48
53 35 0.42
54 1 0.01
55 7 0.08
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (52 bp):
TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATGATGTGATTCGAGA
Found at i:60045844 original size:20 final size:20
Alignment explanation
Indices: 60045819--60045874 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
60045809 TGCCCATGGG
*
60045819 CAGGCCACACGGGCATGTCT
1 CAGGCCACACGGGCATGTCC
*
60045839 CAGGCCACACGGGCGTGTCC
1 CAGGCCACACGGGCATGTCC
60045859 CAGGCCACACGGGCAT
1 CAGGCCACACGGGCAT
60045875 ATGCCCCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.20, C:0.38, G:0.32, T:0.11
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTCC
Found at i:60047774 original size:21 final size:22
Alignment explanation
Indices: 60047722--60047774 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
60047712 AATAAAGTCC
*
60047722 CATGTA-CAAATATCATCATCT
1 CATGTATCATATATCATCATCT
* *
60047743 CATGTTTTCATATATCAT-ATGT
1 CATG-TATCATATATCATCATCT
60047765 CATGTATCAT
1 CATGTATCAT
60047775 CATTTACTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 9 0.35
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (22 bp):
CATGTATCATATATCATCATCT
Found at i:60048083 original size:57 final size:57
Alignment explanation
Indices: 60048022--60048131 Score: 134
Period size: 58 Copynumber: 1.9 Consensus size: 57
60048012 AATACTTTTT
* * *
60048022 ATAACATATGCTCTAAAGGGC-ATGATCTAG-ATTACCCGTCCGGGCTAAATCCAATAC
1 ATAACATAAGCTCGAAAGGACTAT-ATC-AGAATTACCCGTCCGGGCTAAATCCAATAC
* *
60048079 ATAACATAAGCTCGAGAGGACTTATATCAGAATTACCCGTCTGGGCTAAATCC
1 ATAACATAAGCTCGAAAGGAC-TATATCAGAATTACCCGTCCGGGCTAAATCC
60048132 TTTTAAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
57 19 0.42
58 24 0.53
59 2 0.04
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.25
Consensus pattern (57 bp):
ATAACATAAGCTCGAAAGGACTATATCAGAATTACCCGTCCGGGCTAAATCCAATAC
Found at i:60050182 original size:40 final size:40
Alignment explanation
Indices: 60050131--60050280 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
60050121 TATAACATGT
*
60050131 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
* * *
60050171 GCACGAA-TGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATAGAATG--TCTC
* * *
60050211 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-C
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
* *
60050250 AGCATAATTGTCTTCGGG-CTTAGCCCGGATA
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATA
60050281 TCATTCAATT
Statistics
Matches: 91, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
38 1 0.01
39 16 0.18
40 71 0.78
41 3 0.03
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
Found at i:60050265 original size:80 final size:79
Alignment explanation
Indices: 60050131--60050279 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
60050121 TATAACATGT
*
60050131 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
60050196 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
60050211 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
60050274 CCGGAT
64 CCGGAT
60050280 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.25
80 46 0.75
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:60058173 original size:40 final size:40
Alignment explanation
Indices: 60058122--60058271 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
60058112 TATAACATGT
*
60058122 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
* * *
60058162 GCACGAA-TGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATAGAATG--TCTC
* * *
60058202 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-C
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
* *
60058241 AGCATAATTGTCTTCGGG-CTTAGCCCGGATA
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATA
60058272 TCATTCAATT
Statistics
Matches: 91, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
38 1 0.01
39 16 0.18
40 71 0.78
41 3 0.03
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
Found at i:60058256 original size:80 final size:79
Alignment explanation
Indices: 60058122--60058270 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
60058112 TATAACATGT
*
60058122 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
60058187 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
60058202 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
60058265 CCGGAT
64 CCGGAT
60058271 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.25
80 46 0.75
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:60059441 original size:104 final size:102
Alignment explanation
Indices: 60059277--60059483 Score: 335
Period size: 104 Copynumber: 2.0 Consensus size: 102
60059267 TTGGCCAAAT
* *
60059277 ACCATTTCCATGGCATAACAAAGATTTGAGCCATGGCTAACATGCACATCAAGTTAGCAACCAAA
1 ACCACTTCCATGGCATAACAAAGATTTGAGCCATGGCTAACATGAACATCAAGTTAGCAA-CAAA
60059342 ACATGCATGAAACTCCTAACACAACCTCATACATACCTTA
65 ACATGCATGAAACT-C-AACACAACCTCATACATACCTTA
* *
60059382 ACCACTTCCATGGCATAACAAGGATTTGA-CCATGGCTAACATGAACATCAAGTTGGCAACAAAA
1 ACCACTTCCATGGCATAACAAAGATTTGAGCCATGGCTAACATGAACATCAAGTTAGCAACAAAA
*
60059446 CATGCATGAATCTCAACACAACCTCATACATACCTTA
66 CATGCATGAAACTCAACACAACCTCATACATACCTTA
60059483 A
1 A
60059484 TCTTGATGCA
Statistics
Matches: 97, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
101 24 0.25
102 1 0.01
103 17 0.18
104 28 0.29
105 27 0.28
ACGTcount: A:0.39, C:0.27, G:0.12, T:0.22
Consensus pattern (102 bp):
ACCACTTCCATGGCATAACAAAGATTTGAGCCATGGCTAACATGAACATCAAGTTAGCAACAAAA
CATGCATGAAACTCAACACAACCTCATACATACCTTA
Found at i:60059833 original size:104 final size:103
Alignment explanation
Indices: 60059654--60059866 Score: 383
Period size: 104 Copynumber: 2.1 Consensus size: 103
60059644 CCATCGCCGG
60059654 TGTCGACACGAGGGGTTAACAAGCCAAGTTCACATGTTTTGCCCACCAATTTGCATTTCCAGTCA
1 TGTCGACACGAGGGGTTAACAAGCCAAGTTCACATGTTTTGCCCACCAATTTGCATTTCCAGTCA
60059719 GGCTGGAAAACTGCGTCACCGTCGCCTTAAAAATCATA
66 GGCTGGAAAACTGCGTCACCGTCGCCTTAAAAATCATA
*
60059757 TGTCGGACACGAGGGGTTAACAAGCCAAGTTCACTTGTTTTG-CCACCAATTTGACATTTCCAGT
1 TGTC-GACACGAGGGGTTAACAAGCCAAGTTCACATGTTTTGCCCACCAATTTG-CATTTCCAGT
60059821 CAGGCTGGAAAACTGCGTCACCGTCGCCTTAAAAATCATA
64 CAGGCTGGAAAACTGCGTCACCGTCGCCTTAAAAATCATA
*
60059861 TCTCGA
1 TGTCGA
60059867 GTTTCAAAAC
Statistics
Matches: 106, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
103 17 0.16
104 89 0.84
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (103 bp):
TGTCGACACGAGGGGTTAACAAGCCAAGTTCACATGTTTTGCCCACCAATTTGCATTTCCAGTCA
GGCTGGAAAACTGCGTCACCGTCGCCTTAAAAATCATA
Found at i:60061129 original size:40 final size:40
Alignment explanation
Indices: 60061084--60061253 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
60061074 CGGAATATAA
*
60061084 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
60061124 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
60061164 CCGGATATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATA--TAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
60061206 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
60061246 CCGGATAT
1 CCGGATAT
60061254 CATTCAATTT
Statistics
Matches: 105, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
40 72 0.69
41 1 0.01
42 32 0.30
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:60061237 original size:82 final size:82
Alignment explanation
Indices: 60061100--60061253 Score: 204
Period size: 82 Copynumber: 1.9 Consensus size: 82
60061090 ATAACCATGT
* *
60061100 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
60061165 CGGATATGTAGCCACTA
66 CGGATATGTAGCCACTA
* * ** * *
60061182 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
60061245 CCCGGATAT
64 CCCGGATAT
60061254 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
81 3 0.05
82 59 0.95
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (82 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATGTAGCCACTA
Found at i:60067032 original size:12 final size:12
Alignment explanation
Indices: 60067015--60067040 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
60067005 GGTCAAGGAA
60067015 TTCCCTTCGCTT
1 TTCCCTTCGCTT
60067027 TTCCCTTCGCTT
1 TTCCCTTCGCTT
60067039 TT
1 TT
60067041 GGTCGATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.38, G:0.08, T:0.54
Consensus pattern (12 bp):
TTCCCTTCGCTT
Found at i:60069150 original size:40 final size:40
Alignment explanation
Indices: 60069099--60069249 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
60069089 TATAACATGT
*
60069099 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
* * *
60069139 GCACGAA-TGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATAGAATG--TCTC
* * *
60069179 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-C
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
* * *
60069218 AGCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATA
60069250 TCATTCAATT
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 83 0.91
41 3 0.03
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
Found at i:60069233 original size:80 final size:80
Alignment explanation
Indices: 60069099--60069248 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
60069089 TATAACATGT
* *
60069099 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
60069164 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
60069179 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
60069242 CCCGGAT
64 CCCGGAT
60069249 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:60072386 original size:27 final size:27
Alignment explanation
Indices: 60072333--60072390 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
60072323 CTTGGTAGTT
* * * *
60072333 TACCTTGTGTTTAATGTCCCGGTGGAC
1 TACCCTGTATTTAATGTCCCAGCGGAC
*
60072360 TACCCTGTATTTAATGTCCTAGCGGAC
1 TACCCTGTATTTAATGTCCCAGCGGAC
60072387 TACC
1 TACC
60072391 TCATGTTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (27 bp):
TACCCTGTATTTAATGTCCCAGCGGAC
Found at i:60084050 original size:55 final size:53
Alignment explanation
Indices: 60083942--60084138 Score: 191
Period size: 55 Copynumber: 3.6 Consensus size: 53
60083932 ATTAGGGTTT
* ** * * *
60083942 AAGGATACCATGTAAGATCATACCAAGGCATAGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGATAA-G-TTCATAAGGC
* *
60083997 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-C-ATAAGGC
* * * * *
60084052 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATAAGGC
* *
60084105 AAGGATACCTTATAAGACCATGTCAAGACATGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC
60084139 GATGGTAAGT
Statistics
Matches: 117, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
52 6 0.05
53 33 0.28
54 8 0.07
55 66 0.56
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATAAGGC
Found at i:60084409 original size:16 final size:16
Alignment explanation
Indices: 60084388--60084418 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60084378 ATAAATTTGA
60084388 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
60084404 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
60084419 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:60086032 original size:21 final size:22
Alignment explanation
Indices: 60086006--60086046 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
60085996 CACTTGGCAC
60086006 AGGGGC-ACACGCCAGTGTGGG
1 AGGGGCGACACGCCAGTGTGGG
*
60086027 AGGGGCGACACGCCCGTGTG
1 AGGGGCGACACGCCAGTGTG
60086047 ACCAATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.27, G:0.46, T:0.10
Consensus pattern (22 bp):
AGGGGCGACACGCCAGTGTGGG
Found at i:60087274 original size:47 final size:49
Alignment explanation
Indices: 60087204--60087427 Score: 195
Period size: 47 Copynumber: 4.8 Consensus size: 49
60087194 AAGTTTCCGG
* * * *
60087204 TGCCATGTCCTAGACACGATCTTACACTAGCTCAT-ATCTC-ATGTCAA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCGATGCCAA
60087251 TGCCATGTCCCAGACATGGTCTTACACT-GACT-ATCATCTCG-TAGCCAA
1 TGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCATCTCGAT-GCCAA
* * * *
60087299 TG-CATGTCCCAGACAT-GTCTTAC-GTAGGCTTA-CATCTCGAGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTA-GCTCATCATCTCGATGCCAA
* * * *
60087345 TG-CATGTCCCAGACAT-GTCTTACACTAGCAC-TCGTCTCGATTCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCGATGCCAA
* * *
60087391 TGCCATGTCCCAAACATGGTCTTATACTGGCTC-TCAT
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTCATCAT
60087428 AATGCCGCTG
Statistics
Matches: 147, Mismatches: 18, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
45 1 0.01
46 61 0.41
47 64 0.44
48 21 0.14
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (49 bp):
TGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCGATGCCAA
Found at i:60087336 original size:46 final size:46
Alignment explanation
Indices: 60087248--60087462 Score: 154
Period size: 46 Copynumber: 4.6 Consensus size: 46
60087238 TATCTCATGT
60087248 CAATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA-GC
1 CAATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AGGC
* *
60087296 CAATGCATGTCCCAGACATGTCTTAC-GTAGGCT-TACATCTCGAGGC
1 CAATGCATGTCCCAGACATGTCTTACACT-GACTAT-CATCTCGAGGC
* * **
60087342 CGATGCATGTCCCAGACATGTCTTACACT-AGC-ACTCGTCTCGATTC
1 CAATGCATGTCCCAGACATGTCTTACACTGA-CTA-TCATCTCGAGGC
* * * * * * **
60087388 CGATGCCATGTCCCAAACATGGTCTTATACTGGCTCTCATAAT-GCCGC
1 CAATG-CATGTCCCAGACAT-GTCTTACACTGACTATCAT-CTCGAGGC
**
60087436 TGATGCATGTCCCAGACATGTCTTACA
1 CAATGCATGTCCCAGACATGTCTTACA
60087463 TTAGCCCACA
Statistics
Matches: 135, Mismatches: 20, Indels: 26
0.75 0.11 0.14
Matches are distributed among these distances:
45 3 0.02
46 65 0.48
47 42 0.31
48 24 0.18
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
CAATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCGAGGC
Found at i:60094605 original size:40 final size:40
Alignment explanation
Indices: 60094522--60094674 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
60094512 TCAAATGATG
* *
60094522 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
60094562 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
60094602 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
60094643 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
60094675 CGCTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 81 0.86
41 11 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:60101839 original size:40 final size:40
Alignment explanation
Indices: 60101714--60101865 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
60101704 TCGAATGATG
* * *
60101714 TCCGAGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACCAAA
* * *
60101754 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACCAAA
* **
60101794 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCA-AA
* * *
60101835 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
60101866 TCGCTATATC
Statistics
Matches: 92, Mismatches: 15, Indels: 10
0.79 0.13 0.09
Matches are distributed among these distances:
39 1 0.01
40 80 0.87
41 11 0.12
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCAAA
Found at i:60103419 original size:12 final size:12
Alignment explanation
Indices: 60103402--60103439 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
60103392 GTGATTGGTT
60103402 GGAGGGATTTTA
1 GGAGGGATTTTA
60103414 GGAGGGATTTTA
1 GGAGGGATTTTA
* *
60103426 GGAGAGAATTTA
1 GGAGGGATTTTA
60103438 GG
1 GG
60103440 GATTTTGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.42, T:0.29
Consensus pattern (12 bp):
GGAGGGATTTTA
Found at i:60109817 original size:24 final size:27
Alignment explanation
Indices: 60109776--60109835 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
60109766 TTAATGAAAA
* *
60109776 AATT-AGGATAAATTATTA-AA-TATT
1 AATTAAGGATAAATAATTATAACTAAT
60109800 AATTAAGGATAAA-AATTATAACCTAAT
1 AATTAAGGATAAATAATTATAA-CTAAT
60109827 AATTAAGGA
1 AATTAAGGA
60109836 AGTATTTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 8 0.27
25 10 0.33
27 12 0.40
ACGTcount: A:0.53, C:0.03, G:0.10, T:0.33
Consensus pattern (27 bp):
AATTAAGGATAAATAATTATAACTAAT
Found at i:60110540 original size:12 final size:12
Alignment explanation
Indices: 60110523--60110548 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
60110513 AGTTACAACA
60110523 AATTTTGTTTTT
1 AATTTTGTTTTT
60110535 AATTTTGTTTTT
1 AATTTTGTTTTT
60110547 AA
1 AA
60110549 CAAAGATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (12 bp):
AATTTTGTTTTT
Found at i:60111015 original size:24 final size:26
Alignment explanation
Indices: 60110988--60111038 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
60110978 ATAATTTTTT
*
60110988 ATCATGTAATTAT-TTT-TTGAAAAG
1 ATCATATAATTATATTTATTGAAAAG
60111012 ATCATATAATTATATTTGATTGAAAAG
1 ATCATATAATTATATTT-ATTGAAAAG
60111039 TTAAGAGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 12 0.52
25 3 0.13
27 8 0.35
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (26 bp):
ATCATATAATTATATTTATTGAAAAG
Found at i:60113763 original size:23 final size:23
Alignment explanation
Indices: 60113733--60113814 Score: 87
Period size: 23 Copynumber: 3.5 Consensus size: 23
60113723 GAGCTGATGG
60113733 ACAGTAAGCTCTATTGAGCTGAA
1 ACAGTAAGCTCTATTGAGCTGAA
*
60113756 ACAGTAAGCTCTGA-CGAGCTGAA
1 ACAGTAAGCTCT-ATTGAGCTGAA
* *
60113779 TCAGTAAGATC-ATATGAGCTGAGA
1 ACAGTAAGCTCTAT-TGAGCTGA-A
*
60113803 ACAGCAAGCTCT
1 ACAGTAAGCTCT
60113815 TACGAGATGA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
21 1 0.02
23 36 0.77
24 10 0.21
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (23 bp):
ACAGTAAGCTCTATTGAGCTGAA
Found at i:60115341 original size:56 final size:56
Alignment explanation
Indices: 60115275--60115386 Score: 170
Period size: 56 Copynumber: 2.0 Consensus size: 56
60115265 TAGGAGTAGG
* * *
60115275 AATACCCATCTGTAATAGTTTGTAAATGATGCGTACCGAGAACACTCCCAATGGCT
1 AATACCCATCTGTAATAGTTTGTAAACGATGCGTACCAAGAACACTCACAATGGCT
* * *
60115331 AATACCCATCTGTAATATTTTGTAGACGATGTGTACCAAGAACACTCACAATGGCT
1 AATACCCATCTGTAATAGTTTGTAAACGATGCGTACCAAGAACACTCACAATGGCT
60115387 CACGCCTCCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (56 bp):
AATACCCATCTGTAATAGTTTGTAAACGATGCGTACCAAGAACACTCACAATGGCT
Found at i:60118884 original size:2 final size:2
Alignment explanation
Indices: 60118877--60118917 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
60118867 CAATAATAGA
*
60118877 AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60118918 CAATCACCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:60142471 original size:48 final size:48
Alignment explanation
Indices: 60142413--60142645 Score: 223
Period size: 48 Copynumber: 4.9 Consensus size: 48
60142403 GGGTGAATTA
* * *
60142413 CCGATTCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCAAGG
* * * * * *
60142461 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTCTTAATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCAAGG
* * * ***
60142509 CCGATGCCATATCCCAAACATGGTTTTACACTGGCTCTCATGTTGTGG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCAAGG
* * * * * * * *
60142557 CCAATGCCATGTCCCAGACATGGTCTTTCTCTAGCACACATATCAATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCAAGG
* * * *
60142605 TCGATGCCATATCCCAGACATGGTCTTACACTGGCACACAT
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACAT
60142646 ATCACCCAAA
Statistics
Matches: 148, Mismatches: 37, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
48 148 1.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCAAGG
Found at i:60142578 original size:96 final size:96
Alignment explanation
Indices: 60142426--60142645 Score: 296
Period size: 96 Copynumber: 2.3 Consensus size: 96
60142416 ATTCCATGTT
*
60142426 CCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAAACATGGTCTTACA
1 CCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCAATGCCATGTCCCAAACATGGTCTTACA
* * * * *
60142491 CTAGCTCTCGTCTTAATGCCGATGCCATATC
66 CTAGCACACATATCAATGCCGATGCCATATC
* * * * * * *
60142522 CCAAACATGGTTTTACACTGGCTCTCATGTTGTGGCCAATGCCATGTCCCAGACATGGTCTTTCT
1 CCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCAATGCCATGTCCCAAACATGGTCTTACA
*
60142587 CTAGCACACATATCAATGTCGATGCCATATC
66 CTAGCACACATATCAATGCCGATGCCATATC
* *
60142618 CCAGACATGGTCTTACACTGGCACACAT
1 CCAAACATGGTCTTACACTGGCTCACAT
60142646 ATCACCCAAA
Statistics
Matches: 106, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 106 1.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (96 bp):
CCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCAATGCCATGTCCCAAACATGGTCTTACA
CTAGCACACATATCAATGCCGATGCCATATC
Found at i:60145519 original size:16 final size:16
Alignment explanation
Indices: 60145500--60145548 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
60145490 TATATTATGG
*
60145500 CAATTTTATAGTTTTA
1 CAATTTTATAATTTTA
*
60145516 CAATTTTACAATTTTA
1 CAATTTTATAATTTTA
60145532 CAATTTTATAATTTTA
1 CAATTTTATAATTTTA
60145548 C
1 C
60145549 CCCTAATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.35, C:0.10, G:0.02, T:0.53
Consensus pattern (16 bp):
CAATTTTATAATTTTA
Found at i:60145522 original size:8 final size:8
Alignment explanation
Indices: 60145500--60145548 Score: 71
Period size: 8 Copynumber: 6.1 Consensus size: 8
60145490 TATATTATGG
60145500 CAATTTTA
1 CAATTTTA
* *
60145508 TAGTTTTA
1 CAATTTTA
60145516 CAATTTTA
1 CAATTTTA
60145524 CAATTTTA
1 CAATTTTA
60145532 CAATTTTA
1 CAATTTTA
*
60145540 TAATTTTA
1 CAATTTTA
60145548 C
1 C
60145549 CCCTAATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.35, C:0.10, G:0.02, T:0.53
Consensus pattern (8 bp):
CAATTTTA
Found at i:60148245 original size:25 final size:25
Alignment explanation
Indices: 60148211--60148260 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
60148201 CACACGCCAG
60148211 TATGCCAGGCCATGTAATAGCCTAA
1 TATGCCAGGCCATGTAATAGCCTAA
*
60148236 TATGTCAGGCCATGTAATAGCCTAA
1 TATGCCAGGCCATGTAATAGCCTAA
60148261 CTTGTATGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (25 bp):
TATGCCAGGCCATGTAATAGCCTAA
Found at i:60149199 original size:21 final size:21
Alignment explanation
Indices: 60149170--60149217 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
60149160 AAAGCTCGAA
*
60149170 AGCTAAACAGAAGCTTATAAG
1 AGCTGAACAGAAGCTTATAAG
* *
60149191 AGCTGAACAGAAGCTTTTGAG
1 AGCTGAACAGAAGCTTATAAG
60149212 AGCTGA
1 AGCTGA
60149218 TCCACCCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.21
Consensus pattern (21 bp):
AGCTGAACAGAAGCTTATAAG
Found at i:60149757 original size:17 final size:18
Alignment explanation
Indices: 60149726--60149759 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60149716 TAGTTAATTC
*
60149726 ATCAAATTAACTAATTTT
1 ATCAAATCAACTAATTTT
60149744 ATCAAATCAA-TAATTT
1 ATCAAATCAACTAATTT
60149760 ATCCAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (18 bp):
ATCAAATCAACTAATTTT
Found at i:60150906 original size:15 final size:15
Alignment explanation
Indices: 60150886--60150916 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
60150876 AAAATAAAAA
60150886 TTTCCTTTTTTCCTC
1 TTTCCTTTTTTCCTC
60150901 TTTCCTTTTTTCCTC
1 TTTCCTTTTTTCCTC
60150916 T
1 T
60150917 CTGTACCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTCCTTTTTTCCTC
Found at i:60155496 original size:38 final size:38
Alignment explanation
Indices: 60155445--60155520 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
60155435 AATCCGATTG
60155445 ATGGTGTTTTGAGTTGTTTCTTCTTTAATGGAGTTATT
1 ATGGTGTTTTGAGTTGTTTCTTCTTTAATGGAGTTATT
60155483 ATGGTGTTTTGAGTTGTTTCTTCTTTAATGGAGTTATT
1 ATGGTGTTTTGAGTTGTTTCTTCTTTAATGGAGTTATT
60155521 GAGGATAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.16, C:0.05, G:0.24, T:0.55
Consensus pattern (38 bp):
ATGGTGTTTTGAGTTGTTTCTTCTTTAATGGAGTTATT
Found at i:60155845 original size:12 final size:12
Alignment explanation
Indices: 60155828--60155852 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60155818 TAATTAATAT
60155828 TCGGGCAAATTA
1 TCGGGCAAATTA
60155840 TCGGGCAAATTA
1 TCGGGCAAATTA
60155852 T
1 T
60155853 ATTTTAATCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (12 bp):
TCGGGCAAATTA
Found at i:60155990 original size:19 final size:19
Alignment explanation
Indices: 60155966--60156002 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
60155956 TTCTATTAGA
*
60155966 ATTTTTAAGAAGAGTGACT
1 ATTTTTAAGAAGAATGACT
*
60155985 ATTTTTAATAAGAATGAC
1 ATTTTTAAGAAGAATGAC
60156003 ATAAATAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (19 bp):
ATTTTTAAGAAGAATGACT
Found at i:60156567 original size:28 final size:29
Alignment explanation
Indices: 60156504--60156569 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
60156494 AAATTTATAT
**
60156504 TTTAAAAAAAATATAAAAATTTTAAAAAA
1 TTTAAAAAAAATATAAAAAAGTTAAAAAA
*
60156533 TTCTAAAAAATATATAAAGAAAGTT-AAAAA
1 TT-TAAAAAAAATATAAA-AAAGTTAAAAAA
60156563 -TTAAAAA
1 TTTAAAAA
60156570 TTTTGTAGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 6 0.19
29 3 0.09
30 19 0.59
31 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.29
Consensus pattern (29 bp):
TTTAAAAAAAATATAAAAAAGTTAAAAAA
Found at i:60160929 original size:13 final size:13
Alignment explanation
Indices: 60160911--60160936 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60160901 AATTTCACAT
60160911 CTTCAATAATTCA
1 CTTCAATAATTCA
60160924 CTTCAATAATTCA
1 CTTCAATAATTCA
60160937 ATTATCCGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (13 bp):
CTTCAATAATTCA
Found at i:60175795 original size:40 final size:40
Alignment explanation
Indices: 60175751--60175885 Score: 182
Period size: 40 Copynumber: 3.4 Consensus size: 40
60175741 GCCTTCTAGT
* * *
60175751 CTTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGA
1 CTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGA
60175791 CTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTC-GGA
1 CTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGA
* * *
60175830 TCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGA
1 -CTTAGCCCGGATATAGTCGC-TAGCACAAATGCCTTCGGGA
*
60175872 CCTAGCCCGGATAT
1 CTTAGCCCGGATAT
60175886 CATTCGAGTA
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.04
40 51 0.61
41 26 0.31
42 3 0.04
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGA
Found at i:60181513 original size:15 final size:15
Alignment explanation
Indices: 60181457--60181514 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 15
60181447 GAGATGACAT
* *
60181457 GAAAACCAAGAAAAA
1 GAAATCCAAGATAAA
* *
60181472 GAAGTCCAAGACAAA
1 GAAATCCAAGATAAA
**
60181487 GAAATCTTAGATAAA
1 GAAATCCAAGATAAA
60181502 GAAATCCAAGATA
1 GAAATCCAAGATA
60181515 CAATATCATA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.12
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:60192764 original size:17 final size:17
Alignment explanation
Indices: 60192742--60192780 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
60192732 TTAAAATTTC
60192742 CTAACGAAACTTTAATA
1 CTAACGAAACTTTAATA
60192759 CTAACGAAACTTTAATA
1 CTAACGAAACTTTAATA
60192776 CTAAC
1 CTAAC
60192781 TCAATGACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.46, C:0.21, G:0.05, T:0.28
Consensus pattern (17 bp):
CTAACGAAACTTTAATA
Found at i:60203547 original size:48 final size:48
Alignment explanation
Indices: 60203485--60203959 Score: 829
Period size: 48 Copynumber: 10.0 Consensus size: 48
60203475 AGATAAATAT
* *
60203485 ATATGTATATGTGGTAAAGCCAAATGGCTAGTGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
60203533 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
60203581 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
60203629 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
60203677 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
60203725 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
60203773 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
60203821 ATATGTATATGTGGTAAATCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
60203869 ATATGTATATGTGGTAAAGCCGAATGGCTA--GTG-----TGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
60203910 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
60203958 AT
1 AT
60203960 GTGTGTATAT
Statistics
Matches: 409, Mismatches: 11, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
41 37 0.09
43 3 0.01
46 3 0.01
48 366 0.89
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:60203845 original size:28 final size:28
Alignment explanation
Indices: 60203814--60203894 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 28
60203804 TGTGAAATAT
60203814 GAATGAGATATGTATATGTGGTAAATCC
1 GAATGAGATATGTATATGTGGTAAATCC
* **
60203842 GAATG-GCTA-G----TGT-G-AAATAT
1 GAATGAGATATGTATATGTGGTAAATCC
*
60203862 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAATCC
60203890 GAATG
1 GAATG
60203895 GCTAGTGTGT
Statistics
Matches: 38, Mismatches: 7, Indels: 16
0.62 0.11 0.26
Matches are distributed among these distances:
20 9 0.24
21 4 0.11
22 4 0.11
26 4 0.11
27 4 0.11
28 13 0.34
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.30
Consensus pattern (28 bp):
GAATGAGATATGTATATGTGGTAAATCC
Found at i:60203910 original size:41 final size:41
Alignment explanation
Indices: 60203864--60203944 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
60203854 TGAAATATGA
60203864 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGT
1 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGT
60203905 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
60203945 AAATATGTAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.30, C:0.07, G:0.32, T:0.31
Consensus pattern (41 bp):
ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGT
Found at i:60205450 original size:40 final size:40
Alignment explanation
Indices: 60205397--60205755 Score: 601
Period size: 40 Copynumber: 9.0 Consensus size: 40
60205387 TTGAGAGTTA
*
60205397 TATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
60205437 TATGTCCGAGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
60205477 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
60205517 TATATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
60205557 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
60205597 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
60205637 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
60205677 TATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * *
60205717 TATACCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
60205756 ATGTGCATTC
Statistics
Matches: 298, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 298 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:60205969 original size:25 final size:25
Alignment explanation
Indices: 60205919--60205969 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
60205909 TGTGTAACAA
* *
60205919 CAAATGAATAGGGGCACTATATGTG
1 CAAATGAATAGAGGCACTAGATGTG
*
60205944 CAAATGATTAGAGGCACTGAGA-GTG
1 CAAATGAATAGAGGCACT-AGATGTG
60205969 C
1 C
60205970 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTAGATGTG
Found at i:60209521 original size:28 final size:28
Alignment explanation
Indices: 60209489--60209569 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 28
60209479 TGTGAAATAT
60209489 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
* ***
60209517 GAATG-GCTA-G----TGT-G-AAATAT
1 GAATGAGATATGTATATGTGGTAAAGCC
60209537 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
60209565 GAATG
1 GAATG
60209570 GCTAGTGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 16
0.61 0.13 0.26
Matches are distributed among these distances:
20 8 0.22
21 4 0.11
22 4 0.11
26 4 0.11
27 4 0.11
28 13 0.35
ACGTcount: A:0.36, C:0.06, G:0.30, T:0.28
Consensus pattern (28 bp):
GAATGAGATATGTATATGTGGTAAAGCC
Found at i:60209634 original size:48 final size:48
Alignment explanation
Indices: 60209016--60209641 Score: 1153
Period size: 48 Copynumber: 13.0 Consensus size: 48
60209006 AGATAAATAT
* *
60209016 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATTTGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
60209064 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
60209112 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
60209160 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
60209208 ATATGTATATATGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
60209256 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
60209304 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
60209352 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
60209400 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
60209448 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
60209496 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
60209544 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
60209592 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
60209640 AT
1 AT
60209642 GTGTGTATAT
Statistics
Matches: 561, Mismatches: 17, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 561 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:60212648 original size:45 final size:46
Alignment explanation
Indices: 60212530--60212650 Score: 138
Period size: 45 Copynumber: 2.7 Consensus size: 46
60212520 ATCCAAAATG
* *
60212530 AACTCGGACCAACTCAACGAGCTCGGA-TGCTTCACTTATATCACA
1 AACTCGGACCAACTCAACGAGCTCGGATTTCTTCACATATATCACA
* * * * * *
60212575 AACTTGGACCAACTTAACAAGTTTGGATTTC-TCACATATATCATA
1 AACTCGGACCAACTCAACGAGCTCGGATTTCTTCACATATATCACA
* *
60212620 AACTCAGACCAACTCAATGAGCTCGGATTTC
1 AACTCGGACCAACTCAACGAGCTCGGATTTC
60212651 GAAATTCCTA
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
45 58 0.97
46 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (46 bp):
AACTCGGACCAACTCAACGAGCTCGGATTTCTTCACATATATCACA
Found at i:60215628 original size:40 final size:40
Alignment explanation
Indices: 60215583--60215767 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
60215573 TACACATTCA
* *
60215583 AATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACG
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACG
* * *
60215623 AATGCCTTCGGGACTTAACCCGGATTTAGTAGCTCGCTCG
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACG
* *
60215663 AAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACG
* * ** * *
60215703 TATGCCGTC-GGATCTTATTCCGGATTTAGTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACG
*
60215743 AAAGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAT
60215768 ATCATTCGAA
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 107 0.89
41 10 0.08
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACG
Done.